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Conserved domains on  [gi|501084129|ref|WP_012134638|]
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MULTISPECIES: zinc uptake transcriptional repressor Zur [Citrobacter]

Protein Classification

transcriptional repressor( domain architecture ID 10793600)

transcriptional repressor such as ferric uptake regulators, iron-dependent, DNA-binding repressors and activators involved in iron metabolism, other metalloregulatory proteins, or the peroxide-responsive repressor PerR

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
PRK11639 PRK11639
zinc uptake transcriptional repressor Zur;
1-169 3.92e-123

zinc uptake transcriptional repressor Zur;


:

Pssm-ID: 183251  Cd Length: 169  Bit Score: 343.66  E-value: 3.92e-123
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 501084129   1 MEKTTTQELLAQAEKLCAQRNVRLTPQRLEVLRLMSLQEGAISAYDLLDLLRETEPQAKPPTVYRALDFLLEQGFVHKVE 80
Cdd:PRK11639   1 MEKTTTQELLAQAEKLCAQRNVRLTPQRLEVLRLMSLQPGAISAYDLLDLLREAEPQAKPPTVYRALDFLLEQGFVHKVE 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 501084129  81 STNSYVLCHLFDQPTHSSAMFICDRCGVVKEECAEGVEDIMHTLAAKMGFALRHNVIEAHGLCPACVEVEACRHPGECQH 160
Cdd:PRK11639  81 STNSYVLCHLFDQPTHTSAMFICDRCGAVKEECAEGVEDIMHTLAAKMGFALRHNVIEAHGLCAACVEVEACRHPDQCQH 160


                 ....*....
gi 501084129 161 DHSILVKKK 169
Cdd:PRK11639 161 DHSVQVKKK 169
 
Name Accession Description Interval E-value
PRK11639 PRK11639
zinc uptake transcriptional repressor Zur;
1-169 3.92e-123

zinc uptake transcriptional repressor Zur;


Pssm-ID: 183251  Cd Length: 169  Bit Score: 343.66  E-value: 3.92e-123
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 501084129   1 MEKTTTQELLAQAEKLCAQRNVRLTPQRLEVLRLMSLQEGAISAYDLLDLLRETEPQAKPPTVYRALDFLLEQGFVHKVE 80
Cdd:PRK11639   1 MEKTTTQELLAQAEKLCAQRNVRLTPQRLEVLRLMSLQPGAISAYDLLDLLREAEPQAKPPTVYRALDFLLEQGFVHKVE 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 501084129  81 STNSYVLCHLFDQPTHSSAMFICDRCGVVKEECAEGVEDIMHTLAAKMGFALRHNVIEAHGLCPACVEVEACRHPGECQH 160
Cdd:PRK11639  81 STNSYVLCHLFDQPTHTSAMFICDRCGAVKEECAEGVEDIMHTLAAKMGFALRHNVIEAHGLCAACVEVEACRHPDQCQH 160


                 ....*....
gi 501084129 161 DHSILVKKK 169
Cdd:PRK11639 161 DHSVQVKKK 169
Fur COG0735
Fe2+ or Zn2+ uptake regulation protein Fur/Zur [Inorganic ion transport and metabolism];
8-146 7.97e-40

Fe2+ or Zn2+ uptake regulation protein Fur/Zur [Inorganic ion transport and metabolism];


Pssm-ID: 440498  Cd Length: 140  Bit Score: 131.61  E-value: 7.97e-40
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 501084129   8 ELLAQAEKLCAQRNVRLTPQRLEVLRLMSLQEGAISAYDLLDLLRETEPQAKPPTVYRALDFLLEQGFVHKVESTNS--- 84
Cdd:COG0735    2 EALEEAEELLREAGLRLTPQRLAILELLLESDRHLSAEEIYEALRKKGPSISLATVYRTLDLLVEAGLVHRIEFGGGkar 81

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 501084129  85 YVLCHLFDQPtHssamFICDRCGVVKEECAEGVEDIMHTLAAKMGFALRHNVIEAHGLCPAC 146
Cdd:COG0735   82 YELNEGDHHH-H----LICTKCGKVIELDDDEIEELLEELAEPHGFEIESHELEIYGLCPDC 138
Fur_like cd07153
Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, ...
 26-143 1.22e-23

Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Ferric uptake regulator (Fur) and related metalloregulatory proteins are iron-dependent, DNA-binding repressors and activators mainly involved in iron metabolism. A general model for Fur repression under iron-rich conditions is that activated Fur (a dimer having one Fe2+ coordinated per monomer) binds to specific DNA sequences (Fur boxes) in the promoter region of iron-responsive genes, hindering access of RNA polymerase, and repressing transcription. Positive regulation by Fur can be direct or indirect, as in the Fur repression of an anti-sense regulatory small RNA. Some members sense metal ions other than Fe2+. For example, the zinc uptake regulator (Zur) responds to Zn2+, the manganese uptake regulator (Mur) responds to Mn2+, and the nickel uptake regulator (Nur) responds to Ni2+. Other members sense signals other than metal ions. For example, PerR, a metal-dependent sensor of hydrogen peroxide. PerR regulates DNA-binding activity through metal-based protein oxidation, and co-ordinates Mn2+ or Fe2+ at its regulatory site. Fur family proteins contain an N-terminal winged-helix DNA-binding domain followed by a dimerization domain; this CD spans both those domains.


Pssm-ID: 133478 [Multi-domain]  Cd Length: 116  Bit Score: 89.56  E-value: 1.22e-23
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 501084129  26 PQRLEVLRLMSLQEGAISAYDLLDLLRETEPQAKPPTVYRALDFLLEQGFVHKVESTNSYVLCHLFDQPTHssAMFICDR 105
Cdd:cd07153    1 PQRLAILEVLLESDGHLTAEEIYERLRKKGPSISLATVYRTLELLEEAGLVREIELGDGKARYELNTDEHH--HHLICTK 78

                         90       100       110
                 ....*....|....*....|....*....|....*...
gi 501084129 106 CGVVKEECAEGVEDIMHTLAAKMGFALRHNVIEAHGLC 143
Cdd:cd07153   79 CGKVIDFEDCPLEELLEELAAKTGFKITSHRLELYGIC 116
FUR pfam01475
Ferric uptake regulator family; This family includes metal ion uptake regulator proteins, that ...
 19-140 9.64e-09

Ferric uptake regulator family; This family includes metal ion uptake regulator proteins, that bind to the operator DNA and controls transcription of metal ion-responsive genes. This family is also known as the FUR family.


Pssm-ID: 426280  Cd Length: 121  Bit Score: 50.70  E-value: 9.64e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 501084129   19 QRNVRLTPQRLEVLRLM-SLQEGAISAYDLLDLLRETEPQAKPPTVYRALDFLLEQGFVHKVESTNSYVLCHLFDQPTHs 97
Cdd:pfam01475   1 EAGLKLTPQRLKILEVLqKSDKEHLSAEEIYKELREEDPNISLATVYRTLNLLEEAGLVKRLEFDGGESRFELNTGHHH- 79

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|...
gi 501084129   98 sAMFICDRCGVVKEECAEGVEDIMHTLAAKMGFALRHNVIEAH 140
Cdd:pfam01475  80 -DHLICEDCGKVIEFKDDEIEKRQEEIAKKHGFKLVSHRLELY 121
HTH_MARR smart00347
helix_turn_helix multiple antibiotic resistance protein;
24-83 7.53e-04

helix_turn_helix multiple antibiotic resistance protein;


Pssm-ID: 197670 [Multi-domain]  Cd Length: 101  Bit Score: 37.19  E-value: 7.53e-04
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|
gi 501084129    24 LTPQRLEVLRLMSlQEGAISAYDLLDLLretepQAKPPTVYRALDFLLEQGFVHKVESTN 83
Cdd:smart00347   8 LTPTQFLVLRILY-EEGPLSVSELAKRL-----GVSPSTVTRVLDRLEKKGLVRREPSPE 61
 
Name Accession Description Interval E-value
PRK11639 PRK11639
zinc uptake transcriptional repressor Zur;
1-169 3.92e-123

zinc uptake transcriptional repressor Zur;


Pssm-ID: 183251  Cd Length: 169  Bit Score: 343.66  E-value: 3.92e-123
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 501084129   1 MEKTTTQELLAQAEKLCAQRNVRLTPQRLEVLRLMSLQEGAISAYDLLDLLRETEPQAKPPTVYRALDFLLEQGFVHKVE 80
Cdd:PRK11639   1 MEKTTTQELLAQAEKLCAQRNVRLTPQRLEVLRLMSLQPGAISAYDLLDLLREAEPQAKPPTVYRALDFLLEQGFVHKVE 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 501084129  81 STNSYVLCHLFDQPTHSSAMFICDRCGVVKEECAEGVEDIMHTLAAKMGFALRHNVIEAHGLCPACVEVEACRHPGECQH 160
Cdd:PRK11639  81 STNSYVLCHLFDQPTHTSAMFICDRCGAVKEECAEGVEDIMHTLAAKMGFALRHNVIEAHGLCAACVEVEACRHPDQCQH 160


                 ....*....
gi 501084129 161 DHSILVKKK 169
Cdd:PRK11639 161 DHSVQVKKK 169
Fur COG0735
Fe2+ or Zn2+ uptake regulation protein Fur/Zur [Inorganic ion transport and metabolism];
8-146 7.97e-40

Fe2+ or Zn2+ uptake regulation protein Fur/Zur [Inorganic ion transport and metabolism];


Pssm-ID: 440498  Cd Length: 140  Bit Score: 131.61  E-value: 7.97e-40
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 501084129   8 ELLAQAEKLCAQRNVRLTPQRLEVLRLMSLQEGAISAYDLLDLLRETEPQAKPPTVYRALDFLLEQGFVHKVESTNS--- 84
Cdd:COG0735    2 EALEEAEELLREAGLRLTPQRLAILELLLESDRHLSAEEIYEALRKKGPSISLATVYRTLDLLVEAGLVHRIEFGGGkar 81

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 501084129  85 YVLCHLFDQPtHssamFICDRCGVVKEECAEGVEDIMHTLAAKMGFALRHNVIEAHGLCPAC 146
Cdd:COG0735   82 YELNEGDHHH-H----LICTKCGKVIELDDDEIEELLEELAEPHGFEIESHELEIYGLCPDC 138
Fur_like cd07153
Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, ...
 26-143 1.22e-23

Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Ferric uptake regulator (Fur) and related metalloregulatory proteins are iron-dependent, DNA-binding repressors and activators mainly involved in iron metabolism. A general model for Fur repression under iron-rich conditions is that activated Fur (a dimer having one Fe2+ coordinated per monomer) binds to specific DNA sequences (Fur boxes) in the promoter region of iron-responsive genes, hindering access of RNA polymerase, and repressing transcription. Positive regulation by Fur can be direct or indirect, as in the Fur repression of an anti-sense regulatory small RNA. Some members sense metal ions other than Fe2+. For example, the zinc uptake regulator (Zur) responds to Zn2+, the manganese uptake regulator (Mur) responds to Mn2+, and the nickel uptake regulator (Nur) responds to Ni2+. Other members sense signals other than metal ions. For example, PerR, a metal-dependent sensor of hydrogen peroxide. PerR regulates DNA-binding activity through metal-based protein oxidation, and co-ordinates Mn2+ or Fe2+ at its regulatory site. Fur family proteins contain an N-terminal winged-helix DNA-binding domain followed by a dimerization domain; this CD spans both those domains.


Pssm-ID: 133478 [Multi-domain]  Cd Length: 116  Bit Score: 89.56  E-value: 1.22e-23
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 501084129  26 PQRLEVLRLMSLQEGAISAYDLLDLLRETEPQAKPPTVYRALDFLLEQGFVHKVESTNSYVLCHLFDQPTHssAMFICDR 105
Cdd:cd07153    1 PQRLAILEVLLESDGHLTAEEIYERLRKKGPSISLATVYRTLELLEEAGLVREIELGDGKARYELNTDEHH--HHLICTK 78

                         90       100       110
                 ....*....|....*....|....*....|....*...
gi 501084129 106 CGVVKEECAEGVEDIMHTLAAKMGFALRHNVIEAHGLC 143
Cdd:cd07153   79 CGKVIDFEDCPLEELLEELAAKTGFKITSHRLELYGIC 116
FUR pfam01475
Ferric uptake regulator family; This family includes metal ion uptake regulator proteins, that ...
 19-140 9.64e-09

Ferric uptake regulator family; This family includes metal ion uptake regulator proteins, that bind to the operator DNA and controls transcription of metal ion-responsive genes. This family is also known as the FUR family.


Pssm-ID: 426280  Cd Length: 121  Bit Score: 50.70  E-value: 9.64e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 501084129   19 QRNVRLTPQRLEVLRLM-SLQEGAISAYDLLDLLRETEPQAKPPTVYRALDFLLEQGFVHKVESTNSYVLCHLFDQPTHs 97
Cdd:pfam01475   1 EAGLKLTPQRLKILEVLqKSDKEHLSAEEIYKELREEDPNISLATVYRTLNLLEEAGLVKRLEFDGGESRFELNTGHHH- 79

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|...
gi 501084129   98 sAMFICDRCGVVKEECAEGVEDIMHTLAAKMGFALRHNVIEAH 140
Cdd:pfam01475  80 -DHLICEDCGKVIEFKDDEIEKRQEEIAKKHGFKLVSHRLELY 121
PRK09834 PRK09834
DNA-binding transcriptional regulator;
20-87 1.54e-04

DNA-binding transcriptional regulator;


Pssm-ID: 182100 [Multi-domain]  Cd Length: 263  Bit Score: 40.75  E-value: 1.54e-04
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 501084129  20 RNVRLTPQRLEVLRLMSLQEGAISAYDL---LDLLRetepqakpPTVYRALDFLLEQGFVHKVESTNSYVL 87
Cdd:PRK09834   5 KTVRGLSRGLMVLRALNRLDGGATVGLLaelTGLHR--------TTVRRLLETLQEEGYVRRSASDDSFRL 67
HTH_MARR smart00347
helix_turn_helix multiple antibiotic resistance protein;
24-83 7.53e-04

helix_turn_helix multiple antibiotic resistance protein;


Pssm-ID: 197670 [Multi-domain]  Cd Length: 101  Bit Score: 37.19  E-value: 7.53e-04
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|
gi 501084129    24 LTPQRLEVLRLMSlQEGAISAYDLLDLLretepQAKPPTVYRALDFLLEQGFVHKVESTN 83
Cdd:smart00347   8 LTPTQFLVLRILY-EEGPLSVSELAKRL-----GVSPSTVTRVLDRLEKKGLVRREPSPE 61
PadR COG1695
DNA-binding transcriptional regulator, PadR family [Transcription];
23-80 7.55e-04

DNA-binding transcriptional regulator, PadR family [Transcription];


Pssm-ID: 441301  Cd Length: 102  Bit Score: 37.22  E-value: 7.55e-04
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 501084129  23 RLTPQRLEVLRLMSLQEGAISAYDLLDLLRETEP---QAKPPTVYRALDFLLEQGFVHKVE 80
Cdd:COG1695    4 QLRKGTLELLILALLAEGPMYGYEIIKELEERSGgfwKVSEGTLYPALKRLEKEGLVESEW 64
COG4190 COG4190
Predicted transcriptional regulator, contains HTH domain [Transcription];
24-93 6.01e-03

Predicted transcriptional regulator, contains HTH domain [Transcription];


Pssm-ID: 443344  Cd Length: 121  Bit Score: 34.87  E-value: 6.01e-03
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 501084129  24 LTPQRLEVLRLMSlQEGAISAYDLLDLL-RetepqaKPPTVYRALDFLLEQGFVHKVESTNSYVLCHLFDQ 93
Cdd:COG4190   50 LTPKRLELLRAIA-EEGPESIRELARRLgR------DVKNVHRDLKTLEELGLVELEEDGRAKRPVVPYDE 113
MarR pfam01047
MarR family; The Mar proteins are involved in the multiple antibiotic resistance, a ...
 24-83 8.41e-03

MarR family; The Mar proteins are involved in the multiple antibiotic resistance, a non-specific resistance system. The expression of the mar operon is controlled by a repressor, MarR. A large number of compounds induce transcription of the mar operon. This is thought to be due to the compound binding to MarR, and the resulting complex stops MarR binding to the DNA. With the MarR repression lost, transcription of the operon proceeds. The structure of MarR is known and shows MarR as a dimer with each subunit containing a winged-helix DNA binding motif.


Pssm-ID: 426012 [Multi-domain]  Cd Length: 59  Bit Score: 33.29  E-value: 8.41e-03
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 501084129   24 LTPQRLEVLRLMSlQEGAISAYDLLDLLRetepqAKPPTVYRALDFLLEQGFVHKVESTN 83
Cdd:pfam01047   1 LTLTQFHILRILY-EHGPLTVSELAEKLG-----VSKSTVTRVLDRLEKKGLIERSRSPE 54
 
Blast search parameters
Data Source: Precalculated data, version = cdd.v.3.21
Preset Options:Database: CDSEARCH/cdd   Low complexity filter: no  Composition Based Adjustment: yes   E-value threshold: 0.01

References:

  • Wang J et al. (2023), "The conserved domain database in 2023", Nucleic Acids Res.51(D)384-8.
  • Lu S et al. (2020), "The conserved domain database in 2020", Nucleic Acids Res.48(D)265-8.
  • Marchler-Bauer A et al. (2017), "CDD/SPARCLE: functional classification of proteins via subfamily domain architectures.", Nucleic Acids Res.45(D)200-3.
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